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- PDB-9v6l: Psl polysaccharide related protein structures -

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Basic information

Entry
Database: PDB / ID: 9v6l
TitlePsl polysaccharide related protein structures
Components
  • Biofilm formation protein PslD
  • Biofilm formation protein PslE
KeywordsPROTEIN TRANSPORT / complex
Function / homology
Function and homology information


Transferases; Transferring phosphorus-containing groups; Protein-tyrosine kinases / polysaccharide transmembrane transporter activity / porin activity / pore complex / monoatomic ion transport / cell outer membrane / protein tyrosine kinase activity / plasma membrane
Similarity search - Function
Polysaccharide export protein / : / Polysaccharide biosynthesis/export protein / : / : / SLBB domain / Prokaryotic membrane lipoprotein lipid attachment site profile. / P-loop containing nucleoside triphosphate hydrolase
Similarity search - Domain/homology
Biofilm formation protein PslE / Biofilm formation protein PslD
Similarity search - Component
Biological speciesPseudomonas aeruginosa (bacteria)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.06 Å
AuthorsJiao, L. / Yihua, H.
Funding support China, 1items
OrganizationGrant numberCountry
Chinese Academy of Sciences China
CitationJournal: To Be Published
Title: Psl polysaccharide related protein structures
Authors: Jiao, L. / Jiao, L.
History
DepositionMay 27, 2025Deposition site: PDBJ / Processing site: PDBC
Revision 1.0Jun 3, 2026Provider: repository / Type: Initial release
Revision 1.0Jun 3, 2026Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release
Revision 1.0Jun 3, 2026Data content type: FSC / Data content type: FSC / Provider: repository / Type: Initial release
Revision 1.0Jun 3, 2026Data content type: Half map / Part number: 1 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Jun 3, 2026Data content type: Half map / Part number: 2 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Jun 3, 2026Data content type: Image / Data content type: Image / Provider: repository / Type: Initial release
Revision 1.0Jun 3, 2026Data content type: Primary map / Data content type: Primary map / Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: Biofilm formation protein PslE
B: Biofilm formation protein PslE
D: Biofilm formation protein PslD
E: Biofilm formation protein PslE
G: Biofilm formation protein PslD
I: Biofilm formation protein PslE
K: Biofilm formation protein PslD
L: Biofilm formation protein PslD
M: Biofilm formation protein PslE
O: Biofilm formation protein PslD
P: Biofilm formation protein PslE
R: Biofilm formation protein PslD
S: Biofilm formation protein PslE
V: Biofilm formation protein PslD
W: Biofilm formation protein PslE
Y: Biofilm formation protein PslD


Theoretical massNumber of molelcules
Total (without water)829,10416
Polymers829,10416
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

#1: Protein
Biofilm formation protein PslE / Tyrosine-protein kinase ptk


Mass: 75699.758 Da / Num. of mol.: 8
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Pseudomonas aeruginosa (bacteria)
Gene: ptk, CAZ10_28150, GNQ48_26400, PAERUG_P19_London_7_VIM_2_05_10_00389
Production host: Escherichia coli (E. coli) / Strain (production host): DE3
References: UniProt: A0A073A0N3, Transferases; Transferring phosphorus-containing groups; Protein-tyrosine kinases
#2: Protein
Biofilm formation protein PslD / Polysaccharide biosynthesis/export family protein / Polysaccharide export protein


Mass: 27938.232 Da / Num. of mol.: 8
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Pseudomonas aeruginosa (bacteria)
Gene: CAZ10_28145, CSB93_4277, GNQ48_26405, IPC1295_16340, L4V69_19100
Production host: Escherichia coli (E. coli) / References: UniProt: A0A140SD11
Has protein modificationN

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: dual complex of Psl transport channel PslD and PslE / Type: COMPLEX / Entity ID: all / Source: RECOMBINANT
Molecular weightValue: 828 MDa / Experimental value: NO
Source (natural)Organism: Pseudomonas aeruginosa (bacteria)
Source (recombinant)Organism: Escherichia coli (E. coli)
Buffer solutionpH: 8
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
Specimen supportGrid material: GOLD / Grid mesh size: 300 divisions/in. / Grid type: Quantifoil R1.2/1.3
VitrificationCryogen name: NITROGEN

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: TFS KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Nominal magnification: 96000 X / Nominal defocus max: 2000 nm / Nominal defocus min: 1200 nm / Cs: 2.7 mm
Specimen holderCryogen: NITROGEN
Image recordingElectron dose: 60 e/Å2 / Film or detector model: GATAN K3 (6k x 4k)

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Processing

EM software
IDNameCategory
1cryoSPARCparticle selection
13cryoSPARC3D reconstruction
CTF correctionType: NONE
3D reconstructionResolution: 3.06 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 144299 / Symmetry type: POINT
RefinementHighest resolution: 3.06 Å
Stereochemistry target values: REAL-SPACE (WEIGHTED MAP SUM AT ATOM CENTERS)
Refine LS restraints
Refine-IDTypeDev idealNumber
ELECTRON MICROSCOPYf_bond_d0.00942456
ELECTRON MICROSCOPYf_angle_d1.43157528
ELECTRON MICROSCOPYf_dihedral_angle_d10.9135804
ELECTRON MICROSCOPYf_chiral_restr0.0696648
ELECTRON MICROSCOPYf_plane_restr0.0157576

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